Detailed view for Rv3490

Basic information

TDR Targets ID: 6632
Mycobacterium tuberculosis, Alpha, alpha-trehalose-phosphate synthase [UDP-forming] OtsA (trehalose-6-phosphate synthase) (UDP-glucose-glucosephosphate gluc
Source Database / ID:  Tuberculist 

pI: 6.7159 | Length (AA): 500 | MW (Da): 55863 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 0

Druggability Group : DG1

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF00982   Glycosyltransferase family 20

Gene Ontology

Mouse over links to read term descriptions.
GO:0003824   catalytic activity  
GO:0005992   trehalose biosynthetic process  

Metabolic Pathways

Starch and sucrose metabolism (KEGG)
Global map (KEGG)

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
18 495 5jio (A) 8 477 82.00 0 1 2.0181 -1.89

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Dormant phase. hasan
Show/Hide expression data references
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.

Orthologs

Ortholog group members (OG5_129327)

Species Accession Gene Product
Arabidopsis thaliana AT4G27550   putative alpha,alpha-trehalose-phosphate synthase [UDP-forming] 4
Arabidopsis thaliana AT1G78580   alpha,alpha-trehalose-phosphate synthase [UDP-forming] 1
Arabidopsis thaliana AT1G17000   trehalose-6-phosphatase synthase S3
Arabidopsis thaliana AT1G16980   trehalose-phosphatase/synthase 2
Brugia malayi Bm1_40170   Trehalose 6-phosphate synthase protein 1
Candida albicans CaO19.6640   trehalose-6-phosphate synthase cloned by functional complementation of a S. cerevisiae tps1 (YBR126C) mutant
Candida albicans CaO19.13961   trehalose-6-phosphate synthase cloned by functional complementation of a S. cerevisiae tps1 (YBR126C) mutant
Caenorhabditis elegans CELE_ZK54.2   Protein TPS-1, isoform B
Caenorhabditis elegans CELE_F19H8.1   Protein TPS-2
Dictyostelium discoideum DDB_G0287657   alpha,alpha-trehalose-phosphate synthase
Drosophila melanogaster Dmel_CG4104   Trehalose-6-phosphate synthase 1
Escherichia coli b1896   trehalose-6-phosphate synthase
Loa Loa (eye worm) LOAG_14488   hypothetical protein
Loa Loa (eye worm) LOAG_03319   trehalose 6-phosphate synthase 1
Loa Loa (eye worm) LOAG_14308   hypothetical protein
Loa Loa (eye worm) LOAG_14983   hypothetical protein
Loa Loa (eye worm) LOAG_15394   hypothetical protein
Loa Loa (eye worm) LOAG_15948   hypothetical protein
Loa Loa (eye worm) LOAG_12685   hypothetical protein
Mycobacterium leprae ML2254   PROBABLE ALPHA, ALPHA-TREHALOSE-PHOSPHATE SYNTHASE [UDP-FORMING] OTSA (TREHALOSE-6-PHOSPHATE SYNTHASE) (UDP-GLUCOSE-GLUCOSEPHOSP
Mycobacterium tuberculosis Rv3490   Alpha, alpha-trehalose-phosphate synthase [UDP-forming] OtsA (trehalose-6-phosphate synthase) (UDP-glucose-glucosephosphate gluc
Mycobacterium ulcerans MUL_4052   alpha, alpha-trehalose-phosphate synthase OtsA
Oryza sativa 9266089   Os05g0518600
Saccharomyces cerevisiae YBR126C   alpha,alpha-trehalose-phosphate synthase (UDP-forming) TPS1

Essentiality

Rv3490 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3551 this record Mycobacterium tuberculosis essential nmpdr
b1896 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model
No druggable targets predicted through repurposing network model

Assayability

Assay information

  • BRENDA Assay
  • An enzyme with this EC number or name or sequence has been assayed in Mycobacterium tuberculosis ( 2 )

Reagent availability

  • Reagent:
  • Target Type Source Notes
    Rv3490 purified protein BRENDA A protein with this EC number or name or sequence has been purified from Mycobacterium smegmatis ( 2 )

Bibliographic References

5 literature references were collected for this gene.

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User comments

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Gene identifier Rv3490 (Mycobacterium tuberculosis), Alpha, alpha-trehalose-phosphate synthase [UDP-forming] OtsA (trehalose-6-phosphate synthase) (UDP-glucose-glucosephosphate gluc
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